RegulonDB RegulonDB 10.7: Regulon Form
   
   


CRP,Cra,Mlc,NagC regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
CRP Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): Cap, Csm, DNA-binding transcriptional dual regulator CRP, GurB
Gene name(s): crp
Functional conformation(s): CRP , CRP-cAMP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BtsR, CRP, CRP-Sxy, CaiF, ChbR, ComR, CpxR, Cra, CreB, CsgD, CspA, CsqR, CusR, CytR, DcuR, DeoR, DgoR, DksA-ppGpp, DnaA, DpiA, DsdC, EbgR, EnvY, EvgA, ExuR, FNR, FadR, FeaR, FhlA, Fis, FlhDC, FliZ, FucR, Fur, GadE, GadE-RcsB, GadW, GadX, GalR, GalS, GatR, GcvA, GlaR, GlcC, GlpR, GlrR, GntR, GutM, H-NS, HU, HdfR, HipB, HprR, HyfR, HypT, IHF, IclR, IdnR, LacI, LeuO, LexA, LrhA, Lrp, LsrR, MalI, MalT, MarA, MarR, MatA, McbR, MelR, MetJ, MhpR, Mlc, MlrA, ModE, MprA, MqsA, MurR, Nac, NadR, NagC, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PhoB, PhoP, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsAB, RcsB, RcsB-BglJ, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YiaJ, YjjQ, ZraR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
Mlc Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Synonym(s): DNA-binding transcriptional repressor Mlc, DgsA
Gene name(s): mlc
Functional conformation(s): Mlc-EIIGlC , Mlc
Coregulator(s): ArcA, CRP, Cra, Fis, Lrp, Mlc, NagC, SoxS
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
NagC Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class External sensing using transported metabolites
Synonym(s): DNA-binding transcriptional dual regulator NagC, NagR, transcriptional repressor of nag (N-acetylglucosamine) operon
Gene name(s): nagC
Functional conformation(s): NagC , NagC-N-acetyl-D-glucosamine 6-phosphate
Coregulator(s): AraC, BasR, CRP, ChbR, Cra, DksA, DksA-ppGpp, EvgA, FNR, Fur, GadX, GalR, GalS, H-NS, IHF, LexA, Mlc, NagC, NanR, NarL, NarP, PhoP, RcsB, UvrY, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
Cra Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional dual regulator Cra, FruC, FruR, Shl
Gene name(s): cra
Functional conformation(s): Cra-;-D-fructose 1,6-bisphosphate , Cra-β-D-fructofuranose 1-phosphate , Cra , Cra-β-D-fructose 1,6-bisphosphate
Coregulator(s): AcrR, ArcA, BasR, BetI, CRP, CpxR, Cra, CsgD, CusR, DksA, FNR, Fis, FliZ, Fur, GadE, GlcC, GntR, H-NS, HprR, IHF, IclR, KdgR, Lrp, MarA, MarR, Mlc, MlrA, MqsA, NagC, NarL, NarP, OmpR, PdhR, PrpR, RcdA, RcsAB, Rob, RstA, SgrR, SoxS, TyrR, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY CRP,Cra,Mlc,NagC Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
CRP activator Cra repressor Mlc repressor NagC repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator manXp manX , manY , manZ 1901882 1901903 -40.5 cgaaagttaaATTACGGATCTTCATCACATAAaataattttt [APIORCISFBSCS]
[BCE]
[GEA]
[1]
[2]
CRP-cAMP activator manXp manX , manY , manZ 1901830 1901851 -92.5 ctttgcaaacGAATGTGACAAGGATATTTTACctttcgaaat [AIBSCS]
[APIORCISFBSCS]
[GEA]
[2]
[3]
NagC repressor manXp manX , manY , manZ 1901925 1901947 4.0 cgatatctaaAATAAATCGCGAAACGCAGGGGTttttggttgt [BCE]
[GEA]
[1]
[2]
Mlc repressor manXp manX , manY , manZ 1901909 1901931 -13.0 cataaaataaTTTTTTCGATATCTAAAATAAATcgcgaaacgc [BCE]
[GEA]
[1]
Mlc repressor manXp manX , manY , manZ 1901843 1901865 -79.0 tgtgacaaggATATTTTACCTTTCGAAATTTCTgctaatcgaa [BCE]
[GEA]
[1]
NagC repressor manXp manX , manY , manZ 1901842 1901864 -80.0 atgtgacaagGATATTTTACCTTTCGAAATTTCtgctaatcga [AIBSCS]
[APIORCISFBSCS]
[BCE]
[GEA]
[4]
[5]
[1]
[2]
Cra repressor manXp manX , manY , manZ 1901965 1901981 40.5 tgtagcccttATCTGAATCGATTCGATtgtggacgac [AIBSCS]
[GEA]
[6]

Evidence: [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.
[BCE] Binding of cellular extracts
[GEA] Gene expression analysis
[AIBSCS] Automated inference based on similarity to consensus sequences
Reference(s): [1] Plumbridge J. 1998
[2] Plumbridge J., et al., 1991
[3] Zheng D., et al., 2004
[4] Oberto J. 2010
[5] Plumbridge J. 2001
[6] Sarkar D., et al., 2008



Reference(s)    

 [1] Plumbridge J., 1998, Control of the expression of the manXYZ operon in Escherichia coli: Mlc is a negative regulator of the mannose PTS., Mol Microbiol 27(2):369-80

 [2] Plumbridge J., Kolb A., 1991, CAP and Nag repressor binding to the regulatory regions of the nagE-B and manX genes of Escherichia coli., J Mol Biol 217(4):661-79

 [3] Zheng D., Constantinidou C., Hobman JL., Minchin SD., 2004, Identification of the CRP regulon using in vitro and in vivo transcriptional profiling., Nucleic Acids Res 32(19):5874-93

 [4] Oberto J., 2010, FITBAR: a web tool for the robust prediction of prokaryotic regulons., BMC Bioinformatics 11:554

 [5] Plumbridge J., 2001, DNA binding sites for the Mlc and NagC proteins: regulation of nagE, encoding the N-acetylglucosamine-specific transporter in Escherichia coli., Nucleic Acids Res 29(2):506-14

 [6] Sarkar D., Siddiquee KA., Arauzo-Bravo MJ., Oba T., Shimizu K., 2008, Effect of cra gene knockout together with edd and iclR genes knockout on the metabolism in Escherichia coli., Arch Microbiol 190(5):559-71


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